Hi Jack,
Sounds like you are doing the right things.
The .xfm files are for MEDx and are just included for historical
reasons - you can ignore them.
As for the standard - I'm not sure what is wrong. The error
message is definitely what I'd expect if the standard was wrong
or missing. What happens if you run the offending flirt command
on its own at the command line? And did you create the appropriate
directories and files in C1-ISI-C2+.feat or just C1-ISI-C2.feat ?
If this doesn't help, then send us a full directory listing (ls -l) of
your feat and feat/reg directories, together with the avwhd output
for the standard and example_func images.
All the best,
Mark
P.S. Did you have any luck with your other registration problem?
Jack Grinband wrote:
>Hi All,
>I'm having some trouble registering my feat directories. I used FEAT to run a bunch of first level
>analyses without doing registration. In a separate step I ran FLIRT and created an
>example_func2highres and an example_func2standard. I then created a reg directory inside .feat/
>and placed the example_func2standard.mat and aliases to example_func.hdr/.img, highres.hdr/
>.img, and standard.hdr/.img. I got the following error when doing the higher level analysis:
>
>---------------------------------
>Started higher-level FEAT at Wed Mar 10 23:47:00 EST 2004 on sunbolt
>
>/bin/cp /tmp/feat_p9a4a2.fsf design.fsf
>
>/export/apps/fsl_3.1/bin/feat_model design
>
>/export/apps/fsl_3.1/bin/featregapply /home/jgrinband/data/decide/jg/decide6/r1/C1-ISI-
>C2+.feat
>
>/export/apps/fsl_3.1/bin/flirt -ref reg/standard -in example_func.hdr -out reg_standard/
>example_func.hdr -applyxfm -init reg/example_func2standard.mat -interp sinc -datatype float
>AvwOpen: Error while reading header!: Error 0
>ERROR: Could not open image reg/standard
>Image Exception : #8 :: Attempted to use affine transform with no voxels in vout
>Abort - core dumped
>---------------------------------
>
>I am able to open standard.img in the FSLviewer without a problem and it's in a directory that I
>have read permissions for. I've deleted and created the aliases to standard.img/hdr several times.
>
>Any ideas what could be going wrong?
>
>Also, which files need to be in the reg directory for creating reg_standard? For example, I don't
>have highres2standard.xfm and I'm not sure how to create it (or what it's used for).
>thanks a lot,
>
>jack
>
>
|